fabia

FABIA: Factor Analysis for Bicluster Acquisition

Bioconductor version: Development (2.8)

Biclustering by "Factor Analysis for Bicluster Acquisition" (FABIA). FABIA is a model-based technique for biclustering, that is clustering rows and columns simultaneously. Biclusters are found by factor analysis where both the factors and the loading matrix are sparse. FABIA is a multiplicative model that extracts linear dependencies between samples and feature patterns. It captures realistic non-Gaussian data distributions with heavy tails as observed in gene expression measurements. FABIA utilizes well understood model selection techniques like the EM algorithm and variational approaches and is embedded into a Bayesian framework. FABIA ranks biclusters according to their information content and separates spurious biclusters from true biclusters. The code is written in C++ based on Rcpp package.

Author: Sepp Hochreiter

Maintainer: Sepp Hochreiter

To install this package, start R and enter:

source("http:///biocLite.R")
biocLite("fabia")    

Documentation

PDF

R Script

FABIA: Manual for the R package

Reference Manual

Details

biocViews	Bioinformatics, Statistics, Microarray, DifferentialExpression, MultipleComparisons, Clustering, Visualization
Depends	R, methods
Imports	methods, graphics
Suggests	utils
System Requirements
License	LGPL (>= 2.1)
URL	http://www.bioinf.jku.at/software/fabia/fabia.html
Depends On Me
Imports Me
Suggests Me
Version	1.3.1

Package Downloads

Package Source	fabia_1.3.1.tar.gz
Windows Binary	fabia_1.3.1.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	fabia_1.3.1.tgz
Package Downloads Report	Download Stats